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Developmental protein SEPALLATA 3 (Agamous-like MADS-box protein AGL9)

 SEP3_ARATH              Reviewed;         251 AA.
O22456; Q8GWQ4; Q8L9R5;
15-DEC-1998, integrated into UniProtKB/Swiss-Prot.
01-JAN-1998, sequence version 1.
25-OCT-2017, entry version 147.
RecName: Full=Developmental protein SEPALLATA 3;
AltName: Full=Agamous-like MADS-box protein AGL9;
Name=SEP3; Synonyms=AGL9; OrderedLocusNames=At1g24260;
ORFNames=F3I6.19;
Arabidopsis thaliana (Mouse-ear cress).
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; eudicotyledons; Gunneridae;
Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae;
Arabidopsis.
NCBI_TaxID=3702;
[1]
NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
STRAIN=cv. Landsberg erecta;
AGRICOLA=IND21642003; DOI=10.1007/s004970050116;
Mandel M.A., Yanofsky M.F.;
"The Arabidopsis AGL9 MADS box gene is expressed in young flower
primordia.";
Sex. Plant Reprod. 11:22-28(1998).
[2]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=cv. Columbia;
PubMed=11130712; DOI=10.1038/35048500;
Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S.,
White O., Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y.,
Buehler E., Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W.,
Chung M.K., Conn L., Conway A.B., Conway A.R., Creasy T.H., Dewar K.,
Dunn P., Etgu P., Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y.,
Gill J.E., Goldsmith A.D., Haas B., Hansen N.F., Hughes B., Huizar L.,
Hunter J.L., Jenkins J., Johnson-Hopson C., Khan S., Khaykin E.,
Kim C.J., Koo H.L., Kremenetskaia I., Kurtz D.B., Kwan A., Lam B.,
Langin-Hooper S., Lee A., Lee J.M., Lenz C.A., Li J.H., Li Y.-P.,
Lin X., Liu S.X., Liu Z.A., Luros J.S., Maiti R., Marziali A.,
Militscher J., Miranda M., Nguyen M., Nierman W.C., Osborne B.I.,
Pai G., Peterson J., Pham P.K., Rizzo M., Rooney T., Rowley D.,
Sakano H., Salzberg S.L., Schwartz J.R., Shinn P., Southwick A.M.,
Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D.,
Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M.,
Wu D., Yu G., Fraser C.M., Venter J.C., Davis R.W.;
"Sequence and analysis of chromosome 1 of the plant Arabidopsis
thaliana.";
Nature 408:816-820(2000).
[3]
GENOME REANNOTATION.
STRAIN=cv. Columbia;
The Arabidopsis Information Portal (Araport);
Submitted (MAY-2016) to the EMBL/GenBank/DDBJ databases.
[4]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B.,
Feldmann K.A.;
"Full-length cDNA from Arabidopsis thaliana.";
Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases.
[5]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 114-251.
STRAIN=cv. Columbia;
PubMed=11910074; DOI=10.1126/science.1071006;
Seki M., Narusaka M., Kamiya A., Ishida J., Satou M., Sakurai T.,
Nakajima M., Enju A., Akiyama K., Oono Y., Muramatsu M.,
Hayashizaki Y., Kawai J., Carninci P., Itoh M., Ishii Y., Arakawa T.,
Shibata K., Shinagawa A., Shinozaki K.;
"Functional annotation of a full-length Arabidopsis cDNA collection.";
Science 296:141-145(2002).
[6]
CHARACTERIZATION.
PubMed=9418042; DOI=10.1046/j.1365-313X.1997.12050999.x;
Fan H.-Y., Hu Y., Tudor M., Ma H.;
"Specific interactions between the K domains of AG and AGLs, members
of the MADS domain family of DNA binding proteins.";
Plant J. 12:999-1010(1997).
[7]
CHARACTERIZATION, AND DISRUPTION PHENOTYPE.
PubMed=10821278; DOI=10.1038/35012103;
Pelaz S., Ditta G.S., Baumann E., Wisman E., Yanofsky M.F.;
"B and C floral organ identity functions require SEPALLATA MADS-box
genes.";
Nature 405:200-203(2000).
[8]
CHARACTERIZATION.
PubMed=11206550; DOI=10.1038/35054083;
Honma T., Goto K.;
"Complexes of MADS-box proteins are sufficient to convert leaves into
floral organs.";
Nature 409:525-529(2001).
[9]
FUNCTION, AND INTERACTION WITH TT16/AGL32.
PubMed=16080001; DOI=10.1007/s00438-005-0010-y;
Kaufmann K., Anfang N., Saedler H., Theissen G.;
"Mutant analysis, protein-protein interactions and subcellular
localization of the Arabidopsis B sister (ABS) protein.";
Mol. Genet. Genomics 274:103-118(2005).
[10]
INTERACTION WITH AGL16.
PubMed=15805477; DOI=10.1105/tpc.105.031831;
de Folter S., Immink R.G.H., Kieffer M., Parenicova L., Henz S.R.,
Weigel D., Busscher M., Kooiker M., Colombo L., Kater M.M., Davies B.,
Angenent G.C.;
"Comprehensive interaction map of the Arabidopsis MADS Box
transcription factors.";
Plant Cell 17:1424-1433(2005).
[11]
X-RAY CRYSTALLOGRAPHY (2.49 ANGSTROMS) OF 75-178, AND
HOMODIMERIZATION.
PubMed=25228343; DOI=10.1105/tpc.114.127910;
Puranik S., Acajjaoui S., Conn S., Costa L., Conn V., Vial A.,
Marcellin R., Melzer R., Brown E., Hart D., Theissen G., Silva C.S.,
Parcy F., Dumas R., Nanao M., Zubieta C.;
"Structural basis for the oligomerization of the MADS domain
transcription factor SEPALLATA3 in Arabidopsis.";
Plant Cell 26:3603-3615(2014).
-!- FUNCTION: Probable transcription factor active in inflorescence
development and floral organogenesis. Functions with
SEPALLATA1/AGL2 and SEPALLATA2/AGL4 to ensure proper development
of petals, stamens and carpels and to prevent the indeterminate
growth of the flower meristem. Interacts with APETALA1, AGAMOUS or
APETALA3/PISTILLATA to form complexes, that could be involved in
genes regulation during floral meristem development
(PubMed:10821278, PubMed:11206550). Binds specifically to the CArG
box DNA sequence 5'-CC (A/T)6 GG-3' (PubMed:16080001).
{ECO:0000269|PubMed:10821278, ECO:0000269|PubMed:11206550,
ECO:0000269|PubMed:16080001}.
-!- SUBUNIT: Forms homodimers (PubMed:25228343). Heterodimer with AP1
or AG capable of binding to CArG-box sequences. Binds AP3/PI to
form a ternary complex. Interacts with AGL16 (PubMed:15805477).
Interacts with TT16/AGL32 (PubMed:16080001).
{ECO:0000269|PubMed:15805477, ECO:0000269|PubMed:16080001,
ECO:0000269|PubMed:25228343}.
-!- INTERACTION:
P17839:AG; NbExp=4; IntAct=EBI-592020, EBI-592365;
P29381:AGL1; NbExp=5; IntAct=EBI-592020, EBI-592304;
Q38836:AGL11; NbExp=3; IntAct=EBI-592020, EBI-592343;
P35631:AP1; NbExp=4; IntAct=EBI-592020, EBI-592003;
Q2NJQ2:AYWB_224 (xeno); NbExp=4; IntAct=EBI-592020, EBI-16100490;
Q6EVK6:BRM; NbExp=2; IntAct=EBI-592020, EBI-2025535;
P48007:PI; NbExp=3; IntAct=EBI-592020, EBI-1395334;
Q8W234:SEU; NbExp=2; IntAct=EBI-592020, EBI-1771131;
Q5XXE7:SHP2; NbExp=3; IntAct=EBI-592020, EBI-592328;
F4IHS2:SYD; NbExp=2; IntAct=EBI-592020, EBI-15967899;
Q8RYD9:TT16; NbExp=7; IntAct=EBI-592020, EBI-621993;
-!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-
ProRule:PRU00251}.
-!- ALTERNATIVE PRODUCTS:
Event=Alternative splicing; Named isoforms=2;
Name=1;
IsoId=O22456-1; Sequence=Displayed;
Name=2;
IsoId=O22456-2; Sequence=VSP_008893;
Note=May be due to a competing acceptor splice site. No
experimental confirmation available.;
-!- DEVELOPMENTAL STAGE: Expressed early during flower development
within petals, stamens, and carpels.
-!- DISRUPTION PHENOTYPE: Triple mutations in the SEP1, SEP2 and SEP3
genes result in the replacement of the stamens and petals by
sepals and of the carpels by a new mutant flower with sepaloid
organs. {ECO:0000269|PubMed:10821278}.
-!- SEQUENCE CAUTION:
Sequence=BAC43290.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};
-----------------------------------------------------------------------
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-----------------------------------------------------------------------
EMBL; AF015552; AAB67832.1; -; mRNA.
EMBL; AC002396; AAC00586.1; -; Genomic_DNA.
EMBL; CP002684; AEE30502.1; -; Genomic_DNA.
EMBL; CP002684; AEE30503.1; -; Genomic_DNA.
EMBL; AY088272; AAM65812.1; -; mRNA.
EMBL; AK118696; BAC43290.1; ALT_INIT; mRNA.
PIR; T00656; T00656.
RefSeq; NP_564214.2; NM_102272.4. [O22456-1]
RefSeq; NP_850953.1; NM_180622.3. [O22456-2]
UniGene; At.24086; -.
PDB; 4OX0; X-ray; 2.49 A; A/B/C/D=75-178.
PDBsum; 4OX0; -.
ProteinModelPortal; O22456; -.
SMR; O22456; -.
BioGrid; 24278; 25.
DIP; DIP-33800N; -.
IntAct; O22456; 22.
STRING; 3702.AT1G24260.2; -.
PaxDb; O22456; -.
EnsemblPlants; AT1G24260.1; AT1G24260.1; AT1G24260. [O22456-2]
EnsemblPlants; AT1G24260.2; AT1G24260.2; AT1G24260. [O22456-1]
GeneID; 839040; -.
Gramene; AT1G24260.1; AT1G24260.1; AT1G24260.
Gramene; AT1G24260.2; AT1G24260.2; AT1G24260.
KEGG; ath:AT1G24260; -.
Araport; AT1G24260; -.
TAIR; locus:2032372; AT1G24260.
eggNOG; KOG0014; Eukaryota.
eggNOG; COG5068; LUCA.
HOGENOM; HOG000155301; -.
InParanoid; O22456; -.
OMA; YQGQQDH; -.
OrthoDB; EOG09360JC8; -.
PhylomeDB; O22456; -.
PRO; PR:O22456; -.
Proteomes; UP000006548; Chromosome 1.
ExpressionAtlas; O22456; baseline and differential.
Genevisible; O22456; AT.
GO; GO:0005634; C:nucleus; IDA:TAIR.
GO; GO:0003677; F:DNA binding; IDA:TAIR.
GO; GO:0046983; F:protein dimerization activity; IEA:InterPro.
GO; GO:0000977; F:RNA polymerase II regulatory region sequence-specific DNA binding; IEA:InterPro.
GO; GO:0003700; F:transcription factor activity, sequence-specific DNA binding; ISS:TAIR.
GO; GO:0001708; P:cell fate specification; IMP:TAIR.
GO; GO:0009908; P:flower development; TAS:TAIR.
GO; GO:0048481; P:plant ovule development; IMP:TAIR.
GO; GO:0045944; P:positive regulation of transcription from RNA polymerase II promoter; IEA:InterPro.
GO; GO:0010093; P:specification of floral organ identity; IMP:TAIR.
GO; GO:0048833; P:specification of floral organ number; IMP:TAIR.
GO; GO:0006351; P:transcription, DNA-templated; IEA:UniProtKB-KW.
CDD; cd00265; MADS_MEF2_like; 1.
Gene3D; 3.40.1810.10; -; 1.
InterPro; IPR033896; MADS_MEF2-like.
InterPro; IPR002487; TF_Kbox.
InterPro; IPR002100; TF_MADSbox.
InterPro; IPR036879; TF_MADSbox_sf.
Pfam; PF01486; K-box; 1.
Pfam; PF00319; SRF-TF; 1.
PRINTS; PR00404; MADSDOMAIN.
SMART; SM00432; MADS; 1.
SUPFAM; SSF55455; SSF55455; 1.
PROSITE; PS51297; K_BOX; 1.
PROSITE; PS00350; MADS_BOX_1; 1.
PROSITE; PS50066; MADS_BOX_2; 1.
1: Evidence at protein level;
3D-structure; Activator; Alternative splicing; Coiled coil;
Complete proteome; Developmental protein; Differentiation;
DNA-binding; Flowering; Nucleus; Reference proteome; Transcription;
Transcription regulation.
CHAIN 1 251 Developmental protein SEPALLATA 3.
/FTId=PRO_0000199485.
DOMAIN 3 57 MADS-box. {ECO:0000255|PROSITE-
ProRule:PRU00251}.
DOMAIN 91 181 K-box. {ECO:0000255|PROSITE-
ProRule:PRU00629}.
COILED 94 177 {ECO:0000255}.
VAR_SEQ 90 90 Missing (in isoform 2).
{ECO:0000303|Ref.4}.
/FTId=VSP_008893.
HELIX 85 114 {ECO:0000244|PDB:4OX0}.
TURN 115 117 {ECO:0000244|PDB:4OX0}.
HELIX 125 168 {ECO:0000244|PDB:4OX0}.
HELIX 169 172 {ECO:0000244|PDB:4OX0}.
SEQUENCE 251 AA; 29066 MW; 0057CABD3F1AFC40 CRC64;
MGRGRVELKR IENKINRQVT FAKRRNGLLK KAYELSVLCD AEVALIIFSN RGKLYEFCSS
SSMLRTLERY QKCNYGAPEP NVPSREALAV ELSSQQEYLK LKERYDALQR TQRNLLGEDL
GPLSTKELES LERQLDSSLK QIRALRTQFM LDQLNDLQSK ERMLTETNKT LRLRLADGYQ
MPLQLNPNQE EVDHYGRHHH QQQQHSQAFF QPLECEPILQ IGYQGQQDGM GAGPSVNNYM
LGWLPYDTNS I


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